Relating the metatranscriptome and metagenome of the human gut

Eric A. Franzosa1,2, Xochitl C. Morgan3,4, Nicola Segata3, Levi Waldron5, Joshua A Reyes5, Ashlee M. Earl2, Georgia Giannoukos4, Matthew R. Boylan6, Dawn Ciulla4, Dirk Gevers4, Jacques Izard7,8, Wendy S. Garrett9,2,10, Andrew T. Chan11,12, Curtis Huttenhower3,4
1Biostatistics Department andThe Broad Institute, Cambridge, MA 02142;
2The Broad Institute, Cambridge, MA 02142;
3Biostatistics Department and
4bThe Broad Institute, Cambridge, MA 02142;
5aBiostatistics Department and
6Division of Gastroenterology, Massachusetts General Hospital, Boston, MA 02114.
7Department of Microbiology, The Forsyth Institute, Cambridge, MA 02142;Department of Oral Medicine, Infection, and Immunity, Harvard School of Dental Medicine, Boston, MA 02115;
8Department of Oral Medicine, Infection, and Immunity, Harvard School of Dental Medicine, Boston, MA 02115;
9Department of Medical Oncology, Dana-Farber Cancer Institute, Boston, MA 02215; and
10The Broad Institute, Cambridge, MA 02142;Department of Immunology and Infectious Diseases, Harvard School of Public Health, Boston, MA 02115;Department of Medical Oncology, Dana-Farber Cancer Institute, Boston, MA 02215; and.
11Channing Division of Network Medicine, Brigham and Women’s Hospital, Boston, MA 02115
12Division of Gastroenterology, Massachusetts General Hospital, Boston, MA 02114;Channing Division of Network Medicine, Brigham and Women's Hospital, Boston, MA 02115.

Tóm tắt

SignificanceRecent years have seen incredible growth in both the scale and specificity of projects analyzing the microbial organisms living in and on the human body (the human microbiome). Such studies typically require subjects to report to clinics for sample collection, a complicated practice that is impractical for large studies. To address these issues, we developed a protocol that allows subjects to collect microbiome samples at home and ship them to laboratories for multiple different types of molecular analysis. Measurements of microbial species, gene, and gene transcript composition within self-collected samples were consistent across sampling methods. In addition, our subsequent analysis of these samples revealed interesting similarities and differences between the measured functional potential and functional activity of the human microbiome.

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